MmuINT1020369 @ mm10
Intron Retention
Gene
ENSMUSG00000025075 | Habp2
Description
hyaluronic acid binding protein 2 [Source:MGI Symbol;Acc:MGI:1196378]
Coordinates
chr19:56306773-56308944:+
Coord C1 exon
chr19:56306773-56306883
Coord A exon
chr19:56306884-56308836
Coord C2 exon
chr19:56308837-56308944
Length
1953 bp
Sequences
Splice sites
5' ss Seq
ATGGTGGGT
5' ss Score
6.18
3' ss Seq
CTTCTGTCCTTGTGTCTTAGATC
3' ss Score
10.23
Exon sequences
Seq C1 exon
ATTGGACCCCCGATGACTATTACTACAGCTATGAGCAGTCCAGCCCAGACGAAGACCCCAGTGTCACGCAGACCACCCCTGAGAACCCCGACTGGTACTATGAAGACGATG
Seq A exon
GTGGGTGCCAATCCAGGGGGAGGGACGGTGGCTGGACTTATGTGTGGCCATGTGCAAGGGCTTTTCTCTCCCCTCTCTGGCCTGCATGGTGAAATGAGTATTGAAGAGCTCCATAGACTGGAGCTACCCGCATCGAGTCCTACTCTCTGCGAACAGGGAAGGTGCTTAGGAGCATCTCCTTATCCCTAGTACCAAGTGAAGTAAGGGAGGCCAAGAGAGTAGCAGACTTGACCAAGGTCACGCAGCGAGGCAGTGCCTCGTCATCCGGCTCCTGACACTGCAAAGAGATCTCAAGTTCAACATCAGTTCTGTGTCTTTGACCTCAAGCCGTGTCCTAACAGTGCAAAATAATTTAACTTAGCTTTGAGTATTTACATCCCAGCATTGACACGTCCGGCTTCCCGGCTTCGTCCTTTTTCTTTCTCTTCTTGCTACTTATAATCTCTATGTGTGCACGCCTGATCATGCATGTGTATATGTGAGTCTGTGTGTGTGTTGGAGGGGTGTGTATGTTTAGATGCTCATGTACGTGTGTTTGTGTGTGCATATAAAACCCAGCAGGCAAACTCTGATGTCTGACTTCAGGACATCTACCTCAGTTTTTGAGATAGGACCTCTCACTGGCCAGGGCTTACGCTAATTAAACTGCACCGACTGATCAATGAGCCTCCAGTTCTGCCTGCTTCTACCTCCTGGGTGCTGGGATTATAAATATTTGCTACCATGCCCAGCTTTTTATTCGGAATCTTTTCACGGTTGTTATTGTGGTTGTATGAATGTTTATGTGTATTTGTTTGTATGTTTTATGTGTTTGTGTGATTGTGTATATGTATATGTGTGTGTGTGTGTGTGTGTGTGTATAGGTGAGTGTGTCTCTGTGTGTGTTTGTGTGTATGTGAATGTGGTTGTGTGTATAGGTGAGTGTGTCTCTGTGTGTGTTTGTGTGTATATGTGTTGTAGTTGTGTGTTTGTGTGTGAGTGTGGTTGTGTGTGTGAGTGTGTTTGTCTGTGTGTGATTTTCTGTATGCATGTGTATGTAGTCACACACTTAGTTTTGGTTTATGGCTCCTTAGACTGACCAATAAGACAGAAAAGGAAAATAAGAAGCTAGATCCAGGCAAAGCCACGTGACTGAGCCAGGAGAAAGCATAGAAAGAAAGCACTTAGCAGCTGGTATAAAAAAGCTGTGTTACTGCAAAGTGGCCTGGAAGGCAGGGCCAAGATCCAGGGCACCGGGGGAACATCAGAAGAGACCATCAAAACAGGAGCCAGGCCCCAGGATCCTACTTCCCGAACCAAAGAACAATGAGTGTGAGCGCAGGACAAAGAATTCCCCAAGGGAGGATCCATTCAGACAACCATGAAAAAGCCAAAGGCACAGATGAAATATGACAAAATCTAACTGAACAAGGAGTTGAAGAAAGACGAAGGCCACTGGGTCATTTCCTCTGAGCTGTCAATTCTCTGTCACCCTCTTGCCTTTGCTCTTCCTTCCTGATGTTCAGAAAGCGTGGGTTTCGTGAGGGGTGGGTTAGCTCTGCACACTTCTGCCTGACCTCCACCCCGGGGCACTGGAAGTAGGGGAGGTCTTCAGGCTTATGAAATGCCTTCAGCATCAGAGACAGACCCCAATGTACTCCCGGCGAGGTGGGAGGGGAAAAACACTCACAAGGGGAAGGGGACTTTCTCAATGAGAAAGCTGGGTCCAAAGCGGGGCTGAGGGACACAGTCACAATTGTGTCTGCCTGCCTCCCCTCTTACTCGCCTGCGTTCCTCTCCCCGGCATGTGACTGTGGTTGCCCTTGATCTCGAAGGATGATACAGTTCTTGCCTTTGTCCAAGCAACAGTTCCATTGTTGATCTCCCGTTTGGGGCAGGAGGCCGTTAGGTGAGAAGTGGGTCTTCTCTTTGGATTCCCCCTCTCTGACCTTGACTTCTGTCCTTGTGTCTTAG
Seq C2 exon
ATCCATGCCAGTCCAACCCCTGTGAACACGGCGGGGACTGTATCATCAGAGGGGATACCTTCAGTTGCAGCTGCCCAGCCCCCTTCTCGGGGAGCCGGTGCCAGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025075:ENSMUST00000078284:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.526 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=83.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACCCCCGATGACTATTACT
R:
CAGTCTGGCACCGGCTCC
Band lengths:
217-2170
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types